中国物理B ›› 2020, Vol. 29 ›› Issue (10): 108702-.doi: 10.1088/1674-1056/abb225

所属专题: SPECIAL TOPIC — Modeling and simulations for the structures and functions of proteins and nucleic acids

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Xiang Li(李翔)1,2, Hong Qi(祁宏)3, Xiao-Cui Zhang(张晓翠)1, Fei Xu(徐飞)1, Zhi-Yong Yin(尹智勇)1, Shi-Yang Huang(黄世阳)4, Zhao-Shou Wang(王兆守)4,†(), Jian-Wei Shuai(帅建伟)1,2,5,‡()   

  • 收稿日期:2020-06-20 修回日期:2020-08-14 接受日期:2020-08-25 出版日期:2020-10-05 发布日期:2020-10-05
  • 通讯作者: Zhao-Shou Wang(王兆守), Jian-Wei Shuai(帅建伟)

Quantitative modeling of bacterial quorum sensing dynamics in time and space

Xiang Li(李翔)1,2, Hong Qi(祁宏)3, Xiao-Cui Zhang(张晓翠)1, Fei Xu(徐飞)1, Zhi-Yong Yin(尹智勇)1, Shi-Yang Huang(黄世阳)4, Zhao-Shou Wang(王兆守)4,†, and Jian-Wei Shuai(帅建伟)1,2,5,‡   

  1. 1 Department of Physics, College of Physical Science and Technology, Xiamen University, Xiamen 361005, China
    2 State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, Xiamen University, Xiamen 361102, China
    3 Complex Systems Research Center, Shanxi University, Taiyuan 030006, China
    4 Institute of Biochemical Engineering, Department of Chemical and Biochemical Engineering, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, China
    5 National Institute for Data Science in Health and Medicine, Xiamen University, Xiamen 361102, China
  • Received:2020-06-20 Revised:2020-08-14 Accepted:2020-08-25 Online:2020-10-05 Published:2020-10-05
  • Contact: Corresponding author. E-mail: wzs@xmu.edu.cn第一通讯作者 Corresponding author. E-mail: jianweishuai@xmu.edu.cn
  • About author:
    †Corresponding author. E-mail: wzs@xmu.edu.cn
    ‡Corresponding author. E-mail: jianweishuai@xmu.edu.cn
    * Project supported by the National Natural Science Foundation of China (Grant Nos. 11704318, 11675134, and 11874310) and the China Postdoctoral ScienceFoundation (Grant No. 2016M602071).

Abstract:

Quorum sensing (QS) refers to the cell communication through signaling molecules that regulate many important biological functions of bacteria by monitoring their population density. Although a wide spectrum of studies on the QS system mechanisms have been carried out in experiments, mathematical modeling to explore the QS system has become a powerful approach as well. In this paper, we review the research progress of network modeling in bacterial QS to capture the system’s underlying mechanisms. There are four types of QS system models for bacteria: the Gram-negative QS system model, the Gram-positive QS system model, the model for both Gram-negative and Gram-positive QS system, and the synthetic QS system model. These QS system models are mostly described by the ordinary differential equations (ODE) or partial differential equations (PDE) to study the changes of signaling molecule dynamics in time and space and the cell population density variations. Besides the deterministic simulations, the stochastic modeling approaches have also been introduced to discuss the noise effects on kinetics in QS systems. Taken together, these current modeling efforts advance our understanding of the QS system by providing systematic and quantitative dynamics description, which can hardly be obtained in experiments.

Key words: bacterial quorum sensing, signaling molecules, mathematical modeling, dynamic analysis

中图分类号:  (Modeling, computer simulation of cell processes)

  • 87.17.Aa
87.18.Vf (Systems biology) 87.15.km (Protein-protein interactions)